GgaINT0073600 @ galGal3
Intron Retention
Gene
ENSGALG00000015600 | F1NDR4_CHICK
Description
NA
Coordinates
chr4:84420392-84423048:-
Coord C1 exon
chr4:84422717-84423048
Coord A exon
chr4:84421075-84422716
Coord C2 exon
chr4:84420392-84421074
Length
1642 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TGCTGTGCCTCTCTCCGCAGCCA
3' ss Score
11.69
Exon sequences
Seq C1 exon
GGCGGCCGCGGGGCAGCGGGGAGCCGAGGAGCCATCCTCCGGCGGAGCCGGGACCCCCCCTCCCGCAGCTGTTTTATCGACGATGCCGGACGAAGCGACGGAAAACGCCGGCTCCACATCTGCCCGCGTCTCGTCCTTTTTCATCGAGGACCTGCTGGGCACCGAAGGCGGCGGAGGGACGCGGAGGGCGGCGGCGGGAGGCGGAGGTGGGCGCGGAGCTCCGCGCTGCGGCCCCCACTCCCCGCTGCGCCTCGGAGCCTCGGGCTGCCCGCTCCGCGACGCCGCCGTCGGTTGGTACCGTCGAGCTTTCTTGGGCTGCGCCAGCCCCGACA
Seq A exon
GTAAGTTCCCTTTCCCTACGGGGCCCTGAAGGAGATGGGGGGTGCTGCTGACCCCTCCCAGGGTGTCCGGTCCCGTCGCGGTCCCGAGTAGGGAGGGAGAGTGGTGCTGCCGGGGTGTCCTTCGCAGCCTTCACCCCTATTCTGTCCGGAGATTTCGGCTGCCCAAATTTCCGGAAATGCTCTCAGGGTGTTGGACACCTGGAGAGCCTCCGCCCCGCCTGCTGCTCGTCCCGAAATGTCAGCAGCGGGGGCTGTTCTCTCCCTTGGATTGTTCTCTCTCTTTTTCCTTTATTTCTTCCTATCCTTTTTTCTTCCTTTTTTTTTTTTTTTTTTTTTTTTTTTTCCCTTTTCTTTCCTGCTTTACGCTTCCCAGTAACCTCGAAAGCCGGGATCACCGTCCTTGTAAAAGAGTTCTGAGGCAGCCCTCTATAGCACCGGCCCTATAGCACCGTCCCCTCGGTGCAACCGAGGCCCCGCAGCCCTTTCCCCACCGCTCTCCGCGCACTGCGGGGCTCCGCAGGGAGAGGCTTCTCCTCCCACCCGTCTCCGGGGCACAAATTAACGTCTGAAAAAGTTTACAGGCTGCGATCAGCGGTTATTTTTATCCTGATAGAAAAAATATTGTCCATCGGAGCATCACTTTGATTCCGTGCTAGTCTATGGGGTTTGCACGCTTACTGAGTACTTAGTAGAGGCGTGATGTATAATCCAGAGGTTTTCTTTTACAGGGATGGGTTTATTTATATTCTTAATTTCTCTCTCAAATACGTCTAGAAAGAGAAAATAACCACCAAAACAACTGCTCGGTTTTCCTCACTTCTTTTTCTGTCTTTCTTTCTGCCTTCTGTTCTATAAATATTAGGATTTTTTCCCCCTTTAGAACTCCAACTGCAAAACACACTGTGGGAAACCACGGAGACGTGCTGGAGGCAATGTCCCGATATTAGAGCAGCTGATCCCATCGATGTGGTTTATGCAGCTGAGAATAACATGAAGCGAAAGCATTTGTTTTCCCCCTCTCTTCATACACACGCACTCACTGATATACTTACCTCATCTATACACACCCCAACATAGTTACATACGTTCTTGTAAACATATGTGTACATATGTGTGTAAATACATTGGTATATGTGTGTAAATATATACACGTGAGTGTATAAATGTGCAAGCACATAAGCGCATATGTATAAGTATATATATACATACATTAATATATACGTGTGTATATAAATGGACATGTTTATGCTGTATATACATGTGTACAAAACATATAAAGTGCACAGATGTTATATACGTGCATATATATCAGCGTATATGGATGTTATATACATACATATGAATATAGGTATGTGCGCATAGGTATATGCATGCACATAGGTATGTATGCACACATATATGAGTATGCACTTACACATGTGTATATGCATGACATATATTTTACGTATTTACTTGCCAGTATGTGCGTGAGTGTATGAACTCGCCTCTATATGGGAGTCCTTCACAACGCAAGGAGCACTGGCAGCGTCCTCAGCCCCGGGATCGCTGCCTCCGCACCGCGTTGTTTCCCCTTCCCATGCCCGGGCGGGGGGAGCCGCTCCTCGGAGCTCCCCCAACCCCATTGCTGTGCCTCTCTCCGCAG
Seq C2 exon
CCAGCGACCGGGACTCGCCGGAGCTGCCCGAGGACACGGAGCGGGCGGGCGGCGGCGGGCGGGCGGCGGCGCGGGGCCCCGCGGGCGGGAGGCAGAGCTCCGGAGGCCGCGAGGAAGAGGAGGAACGCGGCGAGGAAGCGGGCGAAGCGGAGCAGCGAGCCGCCGGCCGCAAGAAGAAGACGCGCACGGTGTTCAGCCGCAGCCAGGTCTTCCAGCTGGAGTCCACCTTCGACGTGAAGCGCTACCTGAGCAGCTCCGAGAGGGCCGGCCTGGCCGCCTCGCTGCACCTCACCGAGACGCAGGTGAAGATTTGGTTCCAGAACCGCCGCAACAAGTGGAAGCGGCAGCTCGCCGCCGACCTGGAGGCGGCCAACCTCTCACACGCCGCCCAAAGGATTGTGCGGGTCCCCATTTTGTACCACGAGAACTCGCCGGCCAGCGCCTTGGGCTTCGGCCTGCCCCACATGTCCCCCCCCTTGGTGGGCTTCTCCGGCGGCGTCAGTTACCCCCTGGGCACCTTCCCCGCCGCCTCCCTTCCCTTCCTTTGCTCGCAGATGACGGGACTCGTTTGAGCGCCCACCTGTGTCGGGACCGCGGCCCCGAGCCCCCTCCCTTGGCTTCCAGCTTCACCCTCGGACTTTTTCTTTCCACTTTCACCATTTTCCGCTTTTAGACTTTTATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015600:ENSGALT00000025153:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.814 A=NA C2=0.319
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=29.8)
Main Inclusion Isoform:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACCGTCGAGCTTTCTTGGG
R:
AAATCTTCACCTGCGTCTCGG
Band lengths:
350-1992
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]